Possible Loss of the Chloroplast Genome in the Parasitic Flowering Plant Rafflesia lagascae (Rafflesiaceae)

Parasitic plants have increased rates of molecular evolution across all three genomes

(2013) Lindell Bromham et al.   BMC EVOLUTIONARY BIOLOGY

Plastid genome evolution across the genus Cuscuta (Convolvulaceae): two clades within subgenus Grammica exhibit extensive gene loss

(2013) Thomas Braukmann et al.   JOURNAL OF EXPERIMENTAL BOTANY

Mechanisms of Functional and Physical Genome Reduction in Photosynthetic and Nonphotosynthetic Parasitic Plants of the Broomrape Family

(2013) S. Wicke et al.   PLANT CELL

Complete Chloroplast Genome Sequence of Holoparasite Cistanche deserticola (Orobanchaceae) Reveals Gene Loss and Horizontal Gene Transfer from Its Host Haloxylon ammodendron (Chenopodiaceae)

(2013) Xi Li et al.   PLoS One

Mt. Banahaw reveals: The resurrection and neotypification of the name Rafflesia lagascae (Rafflesiaceae) and clues to the dispersal of Rafflesia seeds

(2013) PIETER B. PELSER et al.   Phytotaxa

Massive Mitochondrial Gene Transfer in a Parasitic Flowering Plant Clade

(2013) Zhenxiang Xi et al.   PLoS Genetics

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Horizontal transfer of expressed genes in a parasitic flowering plant

(2012) Zhenxiang Xi et al.   BMC GENOMICS

Plastid genome evolution in mycoheterotrophic Ericaceae

(2012) Thomas Braukmann et al.   PLANT MOLECULAR BIOLOGY

Horizontal transfer of chloroplast genomes between plant species

(2012) S. Stegemann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

What can we learn from tobacco and other Solanaceae about horizontal DNA transfer?

(2011) Martina Talianova et al.   AMERICAN JOURNAL OF BOTANY

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

The evolution of the plastid chromosome in land plants: gene content, gene order, gene function

(2011) Susann Wicke et al.   PLANT MOLECULAR BIOLOGY

Piecing together the puzzle of parasitic plant plastome evolution

(2011) Kirsten Krause   PLANTA

Castor Bean Organelle Genome Sequencing and Worldwide Genetic Diversity Analysis

(2011) Maximo Rivarola et al.   PLoS One

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Insights into the Evolution of Mitochondrial Genome Size from Complete Sequences of Citrullus lanatus and Cucurbita pepo (Cucurbitaceae)

(2010) A. J. Alverson et al.   MOLECULAR BIOLOGY AND EVOLUTION

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

The endosymbiotic origin, diversification and fate of plastids

(2010) P. J. Keeling   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The evolution of parasitism in plants

(2010) James H. Westwood et al.   TRENDS IN PLANT SCIENCE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Taxonomy, ecology, and conservation status of Philippine Rafflesia (Rafflesiaceae)

(2009) J.F. Barcelona et al.   BLUMEA

Plant DNA barcodes and a community phylogeny of a tropical forest dynamics plot in Panama

(2009) W. J. Kress et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Plastid Evolution

(2008) Sven B. Gould et al.   Annual Review of Plant Biology

DNA Transfer from Organelles to the Nucleus: The Idiosyncratic Genetics of Endosymbiosis

(2008) Tatjana Kleine et al.   Annual Review of Plant Biology

Recent developments in the MAFFT multiple sequence alignment program

(2008) K. Katoh et al.   BRIEFINGS IN BIOINFORMATICS

From chloroplasts to “cryptic” plastids: evolution of plastid genomes in parasitic plants

(2008) Kirsten Krause   CURRENT GENETICS

Biosynthesis of plant pigments: anthocyanins, betalains and carotenoids

(2008) Yoshikazu Tanaka et al.   PLANT JOURNAL